Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.2.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.5886	0.057
27DAP/17DAP	0.79611	0.381
39DAP/27DAP	0.89133	0.594
41DAP/39DAP	1.08714	0.473
42DAP/41DAP	0.97308	1
43DAP/42DAP	1.05005	1
47DAP/43DAP	1.52063	0.361
52DAP/47DAP	1.10815	0.869
57DAP/52DAP	0.93912	0.918

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92711	0.326
17DAP/reference	0.86207	0.06
27DAP/reference	0.97119	0.581
39DAP/reference	0.90046	0.149
41DAP/reference	0.77342	0.085
42DAP/reference	0.93168	0.176
43DAP/reference	0.95243	0.448
47DAP/reference	0.89642	0.116
52DAP/reference	1.03722	0.912
57DAP/reference	1.1499	0.063

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82921	0.238
27DAP/17DAP	0.76906	0.259
39DAP/27DAP	0.68985	0.35
41DAP/39DAP	1.02089	1
42DAP/41DAP	1.06	0.816
43DAP/42DAP	1.0956	0.746
47DAP/43DAP	1.07225	0.837
52DAP/47DAP	0.99782	0.969
57DAP/52DAP	1.20514	0.486
57DAP/7DAP	1.14189	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.05456	0.038
17DAP/reference	1.56913	0.011
27DAP/reference	1.18261	0.551
39DAP/reference	1.56916	0.016
41DAP/reference	1.25226	0.021
42DAP/reference	1.63187	0.076
43DAP/reference	1.26434	0.045
47DAP/reference	1.18095	0.224
52DAP/reference	1.30844	0.197
57DAP/reference	1.01199	0.831

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7474	0.018
17DAP/reference	0.74024	0.009
27DAP/reference	0.92395	0.181
39DAP/reference	0.99903	0.621
41DAP/reference	1.01265	1
42DAP/reference	0.86944	0.089
43DAP/reference	0.72558	0.026
47DAP/reference	0.86503	0.083
52DAP/reference	0.92292	0.009
57DAP/reference	0.73987	0.011

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.41088	0.119
17DAP/reference	1.06882	1
27DAP/reference	1.31841	0.052
39DAP/reference	1.3095	0.043
41DAP/reference	1.19939	0.188
42DAP/reference	1.1038	0.671
43DAP/reference	1.22915	0.179
47DAP/reference	0.96142	0.452
52DAP/reference	1.3234	0.295
57DAP/reference	1.55195	0.007

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89454	1
26DAP/20DAP	0.93856	1
34DAP/26DAP	0.86522	0.519
51DAP/34DAP	1.01677	0.911
52DAP/51DAP	1.10956	0.439
53DAP/52DAP	1.23078	0.753
55DAP/53DAP	0.93696	0.698
57DAP/55DAP	0.67155	0.025
62DAP/57DAP	1.38113	0.04
68DAP/62DAP	2.16543	0.073
68DAP/14DAP	2.18221	0.024

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.7796	0.102

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.14691	0.063
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	38.2143	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.77229	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.42812	0.362
IL12-4/WTpooled	1.13763	0.695
IL1-4/WTpooled	1.05004
WT/WTpooled	1.01666	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	0.86945	0.975

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04354	0.875
DC3000/delta hrp 6h	0.92596	0.95
DC3000/delta hrp 12h	1.21923	1
DC3000/delta hrp 24h	0.44137	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.73309	0.025
DC3000 delta B/DC3000 delta AB	0.62055	0.021

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05607	1
Exp 36h	0.8351	0.434
Exp 60h	0.86842	0.522

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.04095	1
Var 0h	0.78775	0.933
Var 12h I row2-row1	1.07522	1
Var 12h NI row2-row1	1.15109	0.34
Var 36h I row2-row1	1.01777	1
Var 36h NI row2-row1	0.96828	0.791
Var 60h I row2-row1	0.75652	0.293
Var 60h NI row2-row1	0.97202	1
Time course 0hI-0hNI	0.96659	0.807
Time course 12hI-12hNI	0.88795	0.219
Time course 36hI-36hNI	1.01201	0.881
Time course 60hI-60hNI	1.05039	0.646

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.07552	0.325
transgenic ySAMdc/azygous control (breaker)	1.00988	1
transgenic ySAMdc/azygous control (red)	0.98643	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93937	0.05

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.46432	0.237

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.64303	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.45345	0.222